P56155 (PYRF_HELPY) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Orotidine 5'-phosphate decarboxylase
EC=4.1.1.23

Alternative name(s):
OMP decarboxylase
Short name=OMPDCase
Short name=OMPdecase

Gene names

Name:	pyrF
Ordered Locus Names:	HP_0005

Organism

Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)

Taxonomic identifier

85962 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Epsilonproteobacteria › Campylobacterales › Helicobacteraceae › Helicobacter

Protein attributes

Sequence length	227 AA.
Sequence status	Complete.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Catalyzes the decarboxylation of orotidine 5'-monophosphate (OMP) to uridine 5'-monophosphate (UMP) By similarity. HAMAP MF_01200_B
Catalytic activity	Orotidine 5'-phosphate = UMP + CO2. HAMAP MF_01200_B
Pathway	Pyrimidine metabolism; UMP biosynthesis via de novo pathway; UMP from orotate: step 2/2. HAMAP MF_01200_B
Subunit structure	Homodimer By similarity. HAMAP MF_01200_B
Sequence similarities	Belongs to the OMP decarboxylase family. Type 1 subfamily.

Ontologies

Keywords
Biological process	Pyrimidine biosynthesis
Molecular function	Decarboxylase Lyase
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	'de novo' UMP biosynthetic process Inferred from electronic annotation. Source: InterPro 'de novo' pyrimidine base biosynthetic process Inferred from electronic annotation. Source: InterPro
Molecular function	orotidine-5'-phosphate decarboxylase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 227	227	Orotidine 5'-phosphate decarboxylase HAMAP MF_01200_B		PRO_0000134547
Regions
	Region	59 – 68	10	Substrate binding By similarity
Sites
	Active site	61	1	Proton donor By similarity
	Binding site	8	1	Substrate By similarity
	Binding site	30	1	Substrate By similarity
	Binding site	118	1	Substrate By similarity
	Binding site	178	1	Substrate By similarity
	Binding site	187	1	Substrate By similarity
	Binding site	207	1	Substrate; via amide nitrogen By similarity
	Binding site	208	1	Substrate By similarity

Sequences

	Sequence		Length	Mass (Da)
	P56155 [UniParc]. Last modified November 1, 1997. Version 1. Checksum: B798A52AD593013F	FASTA	227	25,384
	10 20 30 40 50 60 MQLCVALDLE KKEDNLSLLQ ELKGLDLWAK VGLRSFIRDG AVFLDEIRKI DENFKIFLDL 70 80 90 100 110 120 KLYDIPYTMA NAALECAKLD IDMLTVHLSS AKSALTALMQ RLNALKKRPL IMGVSALTSF 130 140 150 160 170 180 SEEEFLMVYN APLKTQAIKL SAMGKESGID GVVCSVFESL AIKEALGKDF LTLTPGIRLD 190 200 210 220 QNDKEDQERV ANAKEAKQNL SDFIVVGRPI YQAKEPREVV LELLKDC

References

[1]

"The complete genome sequence of the gastric pathogen Helicobacter pylori." Tomb J.-F., White O., Kerlavage A.R., Clayton R.A., Sutton G.G., Fleischmann R.D., Ketchum K.A., Klenk H.-P., Gill S.R., Dougherty B.A., Nelson K.E., Quackenbush J., Zhou L., Kirkness E.F., Peterson S.N., Loftus B.J., Richardson D.L., Dodson R.J. , Khalak H.G., Glodek A., McKenney K., FitzGerald L.M., Lee N., Adams M.D., Hickey E.K., Berg D.E., Gocayne J.D., Utterback T.R., Peterson J.D., Kelley J.M., Cotton M.D., Weidman J.F., Fujii C., Bowman C., Watthey L., Wallin E., Hayes W.S., Borodovsky M., Karp P.D., Smith H.O., Fraser C.M., Venter J.C. Nature 388:539-547(1997) [PubMed: 9252185] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700392 / 26695.

+

Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000511 Genomic DNA. Translation: AAD07078.1.
PIR	E64520.
RefSeq	NP_206807.1. NC_000915.1.
3D structure databases
ProteinModelPortal	P56155.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-3056N.
MINT	MINT-163476.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	898802.
GenomeReviews	Gene locus HP_0005 in contig AE000511_GR.
KEGG	hpy:HP0005.
NMPDR	fig|85962.1.peg.5.
PATRIC	20591197. VBIHelPyl33062_0005.
TIGR	HP_0005.
Phylogenomic databases
HOGENOM	HBG625253.
OMA	TVHAYPQ.
ProtClustDB	PRK00230.
Family and domain databases
HAMAP	MF_01200_B. OMPdecase_type1_B. [Tree]
InterPro	IPR013785. Aldolase_TIM. IPR014732. OMPdecase. IPR018089. OMPdecase_AS. IPR001754. OMPdeCOase_dom. IPR011060. RibuloseP-bd_barrel. [Graphical view]
Gene3D	G3DSA:3.20.20.70. Aldolase_TIM. 1 hit.
KO	K01591.
Pfam	PF00215. OMPdecase. 1 hit. [Graphical view]
SMART	SM00934. OMPdecase. 1 hit. [Graphical view]
SUPFAM	SSF51366. RibP_bind_barrel. 1 hit.
TIGRFAMs	TIGR01740. PyrF. 1 hit.
PROSITE	PS00156. OMPDECASE. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

PYRF_HELPY

Accession

Primary (citable) accession number: P56155

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 75 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program